RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

Searching..................................................done

Query= gi|254780955|ref|YP_003065368.1| hypothetical protein
CLIBASIA_04270 [Candidatus Liberibacter asiaticus str. psy62]
         (204 letters)



>2nys_A AGR_C_3712P; SSPB, stringent starvation protein B, NESG, ATR88,
           structural genomics, PSI-2, protein structure
           initiative; 2.70A {Agrobacterium tumefaciens str} SCOP:
           b.136.1.2
          Length = 176

 Score =  185 bits (471), Expect = 6e-48
 Identities = 96/180 (53%), Positives = 123/180 (68%), Gaps = 13/180 (7%)

Query: 25  MNYDHIRYDILAKEALRGLVKVVLSEVASIGSLPGEHHFYITFATNARGVRISQNLRKNY 84
           M  DHIRYDILA++ALRG+++ VL EVA+ G LPG+HHF+ITF T A GVRISQ+L+  Y
Sbjct: 1   MGQDHIRYDILAQDALRGVIRKVLGEVAATGRLPGDHHFFITFLTGAPGVRISQHLKSKY 60

Query: 85  PEKMTIVIQNQFWDLKVLDNHFEVGLSFSNVPERLVIPFNAIKGFYDPSVNFELEFDVHI 144
            E+MTIVIQ+QFWD+KV +  FE+GLSFS+ PE+LVIP+NAI+GFYDPSVNFELEFDV +
Sbjct: 61  AEQMTIVIQHQFWDMKVTETGFEIGLSFSDTPEKLVIPYNAIRGFYDPSVNFELEFDVPL 120

Query: 145 EHIEEKLEGGNTGKVLTSPDNFDKNQTNSVSQDSSKKKSTKKQNKNKMASVISLDNFRKK 204
              EE              +  +        +     ++ K   + K  SV+SLD FRKK
Sbjct: 121 AKEEE-------------MEEAEITAYPVSHEAKPASETPKSGEEKKEGSVVSLDAFRKK 167


>2qas_A SSPB, hypothetical protein; SSPB, adaptor, CLPX, unknown function,
           hydrolase activator; 2.55A {Caulobacter vibrioides} PDB:
           2qaz_A
          Length = 157

 Score =  177 bits (450), Expect = 2e-45
 Identities = 57/163 (34%), Positives = 87/163 (53%), Gaps = 19/163 (11%)

Query: 28  DHIRYDILAKEALRGLVKVVLSEVASIGSLPGEHHFYITFATNARGVRISQNLRKNYPEK 87
           D ++Y+ +A++ALRG+VK  L + A+ G LP  HH YITF T A GV   Q+L   YP++
Sbjct: 12  DLMQYEAMAQDALRGVVKAALKKAAAPGGLPEPHHLYITFKTKAAGVSGPQDLLSKYPDE 71

Query: 88  MTIVIQNQFWDLKVLDNHFEVGLSFSNVPERLVIPFNAIKGFYDPSVNFELEFDVHIEHI 147
           MTIV+Q+Q+WDL   +  F V L F   P+RL +P+ A+  FYDPSV F L+F       
Sbjct: 72  MTIVLQHQYWDLAPGETFFSVTLKFGGQPKRLSVPYAALTRFYDPSVQFALQFSA----- 126

Query: 148 EEKLEGGNTGKVLTSPDNFDKNQTNSVSQDSSKKKSTKKQNKN 190
                              D+ + +   +D + + ++  +   
Sbjct: 127 --------------PEIIEDEPEPDPEPEDKANQGASGDEGPK 155


>1ou9_A Stringent starvation protein B homolog; SSRA peptide-binding
           protein, homodimer, transport protein; 1.80A
           {Haemophilus influenzae} SCOP: b.136.1.1 PDB: 1oul_A
           1zsz_C
          Length = 129

 Score = 74.4 bits (183), Expect = 2e-14
 Identities = 17/92 (18%), Positives = 32/92 (34%), Gaps = 7/92 (7%)

Query: 64  YITFATNARGVRISQNLRKNYPEKMTIVIQ---NQFWDLKVLDNHFEVGLSFSNVPERLV 120
           Y+       GV +       Y +   IV+    +   +L++ ++  +    F  V   L 
Sbjct: 28  YLVVDATYLGVNVPVE----YVKDGQIVLNLSASATGNLQLTNDFIQFNARFKGVSRELY 83

Query: 121 IPFNAIKGFYDPSVNFELEFDVHIEHIEEKLE 152
           IP  A    Y       + F+    + E  +E
Sbjct: 84  IPMGAALAIYARENGDGVMFEPEEIYDELNIE 115


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl reductase,
           beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 2006

 Score = 41.1 bits (96), Expect = 2e-04
 Identities = 32/190 (16%), Positives = 55/190 (28%), Gaps = 82/190 (43%)

Query: 41  RGLVKVVLSE-VASI-GSLPGEHHFYITFATNAR-----G-----VRISQNLRKN----- 83
             L +  + + V      LP      I+    A+     G       ++  LRK      
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSG 401

Query: 84  -------YPEKMTIVIQNQFWDL----------------KVLDNHFEVGLSFSNVPERLV 120
                  + E+  +   N+F  L                 +  +  +  +SF+   + + 
Sbjct: 402 LDQSRIPFSER-KLKFSNRF--LPVASPFHSHLLVPASDLINKDLVKNNVSFN--AKDIQ 456

Query: 121 IP---------------------FNAIKGFYDPSVNFE--LEFDV-HIEHIEEKLE---G 153
           IP                      + I     P V +E   +F   HI      L+   G
Sbjct: 457 IPVYDTFDGSDLRVLSGSISERIVDCI--IRLP-VKWETTTQFKATHI------LDFGPG 507

Query: 154 GNTG-KVLTS 162
           G +G  VLT 
Sbjct: 508 GASGLGVLTH 517



 Score = 29.1 bits (65), Expect = 0.75
 Identities = 14/38 (36%), Positives = 16/38 (42%), Gaps = 8/38 (21%)

Query: 97   WDLKVLDNHFEVGLSFS------NVPERLVIPFNAIKG 128
            W+    DNHF+    FS      N P  L I F   KG
Sbjct: 1646 WNRA--DNHFKDTYGFSILDIVINNPVNLTIHFGGEKG 1681


>1yfn_A Stringent starvation protein B; protein-peptide complex, SSPB,
           RSEA, protein binding; 1.80A {Escherichia coli} SCOP:
           b.136.1.1 PDB: 1ox9_A 1ox8_A
          Length = 118

 Score = 29.3 bits (66), Expect = 0.59
 Identities = 12/87 (13%), Positives = 30/87 (34%), Gaps = 3/87 (3%)

Query: 64  YITFATNARGVRISQNLRKNYPEKMTIVIQNQFWDLKVLDNHF-EVGLSFSNVPERLVIP 122
           ++       GV++     ++   ++ + I  +      L N        F  +P ++ +P
Sbjct: 29  HLVVDVTLPGVQVPMEYARD--GQIVLNIAPRAVGNLELANDEVRFNARFGGIPRQVSVP 86

Query: 123 FNAIKGFYDPSVNFELEFDVHIEHIEE 149
             A+   Y         F+    + E+
Sbjct: 87  LAAVLAIYARENGAGTMFEPEAAYDED 113


>1ou8_A Stringent starvation protein B homolog; peptide-binding pocket,
           protein-peptide complex, homodimer, transport protein;
           1.60A {Haemophilus influenzae} SCOP: b.136.1.1 PDB:
           1zsz_A 1twb_A 1zsz_B
          Length = 111

 Score = 29.2 bits (66), Expect = 0.60
 Identities = 12/69 (17%), Positives = 25/69 (36%), Gaps = 3/69 (4%)

Query: 64  YITFATNARGVRISQNLRKNYPEKMTIVIQNQF-WDLKVLDNHFEVGLSFSNVPERLVIP 122
           Y+       GV +     K+   ++ + +      +L++ ++  +    F  V   L IP
Sbjct: 28  YLVVDATYLGVNVPVEYVKD--GQIVLNLSASATGNLQLTNDFIQFNARFKGVSRELYIP 85

Query: 123 FNAIKGFYD 131
             A    Y 
Sbjct: 86  MGAALAIYA 94


>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse
           transcriptase, transferase, replication; 3.00A {Moloney
           murine leukemia virus} SCOP: e.8.1.2
          Length = 455

 Score = 26.4 bits (57), Expect = 4.4
 Identities = 2/16 (12%), Positives = 9/16 (56%)

Query: 17  IIKWIDTLMNYDHIRY 32
           +  +   L++ D +++
Sbjct: 438 MTHYQALLLDTDRVQF 453


>2k8i_A SLYD, peptidyl-prolyl CIS-trans isomerase; ppiase, chaperone,
           rotamase; NMR {Escherichia coli}
          Length = 171

 Score = 25.8 bits (56), Expect = 6.7
 Identities = 16/102 (15%), Positives = 34/102 (33%), Gaps = 12/102 (11%)

Query: 65  ITFATNARGVRISQNLRKNYPEKMTIVIQNQFWDLKVLDNHFEVGLSFSNVPERLVIPFN 124
           +          ++      Y +    ++Q    D+ +  +  +VG+ F    ++  +P  
Sbjct: 49  LEGHEVGDKFDVAVGANDAYGQYDENLVQRVPKDVFMGVDELQVGMRFLAETDQGPVPVE 108

Query: 125 AIKGFYD--------PSVNFELEFDVHIEHI----EEKLEGG 154
                 D              L+F+V +  I    EE+L  G
Sbjct: 109 ITAVEDDHVVVDGNHMLAGQNLKFNVEVVAIREATEEELAHG 150


>1v54_A Cytochrome C oxidase polypeptide I; oxidoreductase; HET: FME TPO
          HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus}
          SCOP: f.24.1.1 PDB: 1oco_A* 1occ_A* 1ocz_A* 1ocr_A*
          1v55_A* 2dyr_A* 2dys_A* 2eij_A* 2eik_A* 2eil_A* 2eim_A*
          2ein_A* 2occ_A* 2zxw_A*
          Length = 514

 Score = 25.5 bits (56), Expect = 7.7
 Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 14/63 (22%)

Query: 16 FIIKWIDTLMNYDH----IRYDILAKEALRGLVKVVLS-----EVASIGSLPGEHHFYIT 66
          FI +W+ +    +H      Y +    A  G+V   LS     E+   G+L G+   Y  
Sbjct: 2  FINRWLFST---NHKDIGTLYLLFG--AWAGMVGTALSLLIRAELGQPGTLLGDDQIYNV 56

Query: 67 FAT 69
            T
Sbjct: 57 VVT 59


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.319    0.135    0.402 

Gapped
Lambda     K      H
   0.267   0.0578    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,805,619
Number of extensions: 81355
Number of successful extensions: 202
Number of sequences better than 10.0: 1
Number of HSP's gapped: 200
Number of HSP's successfully gapped: 19
Length of query: 204
Length of database: 5,693,230
Length adjustment: 88
Effective length of query: 116
Effective length of database: 3,559,758
Effective search space: 412931928
Effective search space used: 412931928
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (24.9 bits)